4E1L

Crystal structure of Acetoacetyl-CoA thiolase (thlA2) from Clostridium difficile

• PDB DOI: https://doi.org/10.2210/pdb4E1L/pdb

• Classification: TRANSFERASE
• Organism(s): Clostridioides difficile 630
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-03-06 Released: 2012-03-21 
• Deposition Author(s): Anderson, S.M., Wawrzak, Z., Kudritska, M., Peterson, S.N., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.207 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 

Starting Model: experimental

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 174 kDa 
• Atom Count: 11,993 
• Modelled Residue Count: 1,499 
• Deposited Residue Count: 1,580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetoacetyl-CoA thiolase 2	A, B, C, D	395	Clostridioides difficile 630	Mutation(s): 0  Gene Names: thlA2, CD630_26760 EC: 2.3.1.9
UniProt
Find proteins for Q183B0 (Clostridioides difficile (strain 630)) Explore Q183B0  Go to UniProtKB:  Q183B0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IOD	AA [auth B], AB [auth D], BA [auth B], BB [auth D], CA [auth B], CB [auth D], DA [auth B], DB [auth D], E [auth A], EA [auth B], EB [auth D], F [auth A], FA [auth B], FB [auth D], G [auth A], GA [auth C], GB [auth D], H [auth A], HA [auth C], HB [auth D], I [auth A], IA [auth C], IB [auth D], J [auth A], JA [auth C], K [auth A], KA [auth C], L [auth A], LA [auth C], M [auth A], MA [auth C], N [auth A], NA [auth C], O [auth A], OA [auth C], P [auth A], PA [auth C], Q [auth A], QA [auth C], R [auth A], RA [auth C], S [auth B], SA [auth C], T [auth B], TA [auth C], U [auth B], UA [auth C], V [auth B], VA [auth D], W [auth B], WA [auth D], X [auth B], XA [auth D], Y [auth B], YA [auth D], Z [auth B], ZA [auth D]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.207 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m34e1l

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.32	α = 90
b = 78.92	β = 112.73
c = 127.03	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
BLU-MAX	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-03-21 
Deposition Author(s): Anderson, S.M., Wawrzak, Z., Kudritska, M., Peterson, S.N., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2012-03-21
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description